Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene79088.t1 | XP_003601914.2 | 87 | 246 | 26 | 2 | 1 | 242 | 1 | 244 | 1.10E-110 | 409.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene79088.t1 | O22227 | 41.5 | 171 | 84 | 5 | 83 | 240 | 129 | 296 | 3.0e-27 | 123.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene79088.t1 | G7J372 | 87.0 | 246 | 26 | 2 | 1 | 242 | 1 | 244 | 8.1e-111 | 409.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049159 | MS.gene79088 | 0.818888 | 1.55E-52 | -1.69E-46 |
| MS.gene049850 | MS.gene79088 | 0.825313 | 5.02E-54 | -1.69E-46 |
| MS.gene050020 | MS.gene79088 | 0.831617 | 1.51E-55 | -1.69E-46 |
| MS.gene05016 | MS.gene79088 | 0.810366 | 1.19E-50 | -1.69E-46 |
| MS.gene050759 | MS.gene79088 | 0.807864 | 4.10E-50 | -1.69E-46 |
| MS.gene050807 | MS.gene79088 | 0.812655 | 3.80E-51 | -1.69E-46 |
| MS.gene051198 | MS.gene79088 | 0.830501 | 2.83E-55 | -1.69E-46 |
| MS.gene051247 | MS.gene79088 | 0.812414 | 4.29E-51 | -1.69E-46 |
| MS.gene05157 | MS.gene79088 | 0.825089 | 5.67E-54 | -1.69E-46 |
| MS.gene051719 | MS.gene79088 | 0.832467 | 9.30E-56 | -1.69E-46 |
| MS.gene051720 | MS.gene79088 | 0.831884 | 1.30E-55 | -1.69E-46 |
| MS.gene051744 | MS.gene79088 | 0.813805 | 2.13E-51 | -1.69E-46 |
| MS.gene052020 | MS.gene79088 | 0.802688 | 4.98E-49 | -1.69E-46 |
| MS.gene052323 | MS.gene79088 | 0.823335 | 1.46E-53 | -1.69E-46 |
| MS.gene052516 | MS.gene79088 | 0.825456 | 4.64E-54 | -1.69E-46 |
| MS.gene052582 | MS.gene79088 | 0.808554 | 2.92E-50 | -1.69E-46 |
| MS.gene052584 | MS.gene79088 | 0.803395 | 3.56E-49 | -1.69E-46 |
| MS.gene052611 | MS.gene79088 | 0.808025 | 3.79E-50 | -1.69E-46 |
| MS.gene052665 | MS.gene79088 | 0.826853 | 2.16E-54 | -1.69E-46 |
| MS.gene052896 | MS.gene79088 | 0.823499 | 1.34E-53 | -1.69E-46 |
| MS.gene053008 | MS.gene79088 | 0.811546 | 6.63E-51 | -1.69E-46 |
| MS.gene053226 | MS.gene79088 | 0.806031 | 1.00E-49 | -1.69E-46 |
| MS.gene054651 | MS.gene79088 | 0.82162 | 3.67E-53 | -1.69E-46 |
| MS.gene055465 | MS.gene79088 | 0.828717 | 7.70E-55 | -1.69E-46 |
| MS.gene055466 | MS.gene79088 | 0.836623 | 8.40E-57 | -1.69E-46 |
| MS.gene055468 | MS.gene79088 | 0.804298 | 2.31E-49 | -1.69E-46 |
| MS.gene055512 | MS.gene79088 | 0.815077 | 1.11E-51 | -1.69E-46 |
| MS.gene05604 | MS.gene79088 | 0.812606 | 3.90E-51 | -1.69E-46 |
| MS.gene056173 | MS.gene79088 | 0.803324 | 3.68E-49 | -1.69E-46 |
| MS.gene056366 | MS.gene79088 | 0.801659 | 8.11E-49 | -1.69E-46 |
| MS.gene057444 | MS.gene79088 | 0.814678 | 1.36E-51 | -1.69E-46 |
| MS.gene057446 | MS.gene79088 | 0.8063 | 8.80E-50 | -1.69E-46 |
| MS.gene057869 | MS.gene79088 | 0.812884 | 3.39E-51 | -1.69E-46 |
| MS.gene057915 | MS.gene79088 | 0.823278 | 1.51E-53 | -1.69E-46 |
| MS.gene058010 | MS.gene79088 | 0.81127 | 7.61E-51 | -1.69E-46 |
| MS.gene058625 | MS.gene79088 | 0.839861 | 1.23E-57 | -1.69E-46 |
| MS.gene05978 | MS.gene79088 | 0.800648 | 1.31E-48 | -1.69E-46 |
| MS.gene059842 | MS.gene79088 | 0.8029 | 4.50E-49 | -1.69E-46 |
| MS.gene060137 | MS.gene79088 | -0.802369 | 5.80E-49 | -1.69E-46 |
| MS.gene06052 | MS.gene79088 | 0.809373 | 1.95E-50 | -1.69E-46 |
| MS.gene060587 | MS.gene79088 | 0.825576 | 4.35E-54 | -1.69E-46 |
| MS.gene060803 | MS.gene79088 | 0.800226 | 1.59E-48 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene79088.t1 | MTR_3g086740 | 95.935 | 246 | 4 | 2 | 1 | 242 | 1 | 244 | 1.53e-173 | 477 |
| MS.gene79088.t1 | MTR_8g089865 | 65.106 | 235 | 61 | 6 | 14 | 241 | 1 | 221 | 1.32e-95 | 279 |
| MS.gene79088.t1 | MTR_7g064810 | 47.239 | 163 | 80 | 3 | 83 | 242 | 65 | 224 | 1.07e-40 | 139 |
| MS.gene79088.t1 | MTR_8g040690 | 41.618 | 173 | 94 | 4 | 72 | 240 | 77 | 246 | 7.17e-40 | 138 |
| MS.gene79088.t1 | MTR_8g040680 | 42.593 | 162 | 86 | 4 | 83 | 240 | 98 | 256 | 9.23e-38 | 133 |
| MS.gene79088.t1 | MTR_3g101300 | 42.286 | 175 | 88 | 6 | 77 | 241 | 65 | 236 | 3.93e-37 | 130 |
| MS.gene79088.t1 | MTR_3g094830 | 40.719 | 167 | 91 | 5 | 79 | 240 | 95 | 258 | 1.41e-36 | 130 |
| MS.gene79088.t1 | MTR_4g112370 | 37.126 | 167 | 91 | 4 | 83 | 240 | 98 | 259 | 2.60e-33 | 121 |
| MS.gene79088.t1 | MTR_2g054380 | 38.547 | 179 | 92 | 6 | 72 | 240 | 99 | 269 | 3.52e-33 | 121 |
| MS.gene79088.t1 | MTR_2g055990 | 36.207 | 174 | 102 | 4 | 73 | 240 | 88 | 258 | 1.24e-31 | 117 |
| MS.gene79088.t1 | MTR_1g053130 | 41.667 | 192 | 92 | 5 | 66 | 240 | 95 | 283 | 2.32e-31 | 117 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene79088.t1 | AT5G65340 | 54.959 | 242 | 93 | 6 | 11 | 241 | 14 | 250 | 2.54e-82 | 246 |
| MS.gene79088.t1 | AT2G22460 | 58.442 | 231 | 85 | 5 | 18 | 241 | 17 | 243 | 4.08e-78 | 236 |
| MS.gene79088.t1 | AT1G21050 | 47.598 | 229 | 106 | 6 | 19 | 241 | 25 | 245 | 4.98e-59 | 187 |
| MS.gene79088.t1 | AT1G21050 | 47.598 | 229 | 106 | 6 | 19 | 241 | 61 | 281 | 1.29e-58 | 187 |
| MS.gene79088.t1 | AT1G76610 | 44.196 | 224 | 106 | 5 | 19 | 241 | 21 | 226 | 2.03e-50 | 164 |
| MS.gene79088.t1 | AT2G21990 | 44.253 | 174 | 90 | 4 | 71 | 240 | 81 | 251 | 8.36e-43 | 145 |
| MS.gene79088.t1 | AT4G39610 | 43.956 | 182 | 84 | 6 | 71 | 240 | 88 | 263 | 2.95e-42 | 144 |
| MS.gene79088.t1 | AT2G37880 | 44.379 | 169 | 84 | 4 | 81 | 241 | 79 | 245 | 3.95e-40 | 139 |
| MS.gene79088.t1 | AT5G06990 | 41.618 | 173 | 85 | 4 | 81 | 240 | 91 | 260 | 4.00e-38 | 134 |
| MS.gene79088.t1 | AT2G41660 | 41.520 | 171 | 84 | 5 | 83 | 240 | 129 | 296 | 1.35e-34 | 125 |
| MS.gene79088.t1 | AT5G42680 | 41.765 | 170 | 91 | 6 | 77 | 241 | 71 | 237 | 3.69e-34 | 123 |
| MS.gene79088.t1 | AT5G42680 | 41.765 | 170 | 91 | 6 | 77 | 241 | 71 | 237 | 3.69e-34 | 123 |
| MS.gene79088.t1 | AT3G25640 | 35.260 | 173 | 93 | 6 | 83 | 240 | 98 | 266 | 1.55e-29 | 112 |
| MS.gene79088.t1 | AT3G25640 | 35.260 | 173 | 93 | 6 | 83 | 240 | 124 | 292 | 3.26e-29 | 111 |
| MS.gene79088.t1 | AT5G23100 | 31.443 | 194 | 94 | 5 | 81 | 240 | 88 | 276 | 3.22e-26 | 103 |
Find 40 sgRNAs with CRISPR-Local
Find 47 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTGGTACTGGTGTTATAAA+TGG | 0.255094 | 3.2:+74071597 | MS.gene79088:CDS |
| ACAATTACTGGCACGATATT+CGG | 0.320130 | 3.2:+74071294 | MS.gene79088:CDS |
| TCCTTTGCTAAAACACTTGT+TGG | 0.329615 | 3.2:-74071399 | None:intergenic |
| ATGGATATTTGTTATAGTTT+TGG | 0.334698 | 3.2:-74071242 | None:intergenic |
| GCAAGTTCTAAAAGAAGAAT+AGG | 0.336410 | 3.2:-74071372 | None:intergenic |
| GTCTTGTTCTTGTTCTACTA+AGG | 0.338250 | 3.2:-74071190 | None:intergenic |
| CAAGTTCTAAAAGAAGAATA+GGG | 0.363193 | 3.2:-74071371 | None:intergenic |
| TTTGGATTATGTATTGTAAT+GGG | 0.364697 | 3.2:+74071496 | MS.gene79088:CDS |
| ATGACATCTACAACAATTAC+TGG | 0.370669 | 3.2:+74071282 | MS.gene79088:CDS |
| CTTTGGATTATGTATTGTAA+TGG | 0.380120 | 3.2:+74071495 | MS.gene79088:CDS |
| TCTTGACCAATGCTTCCTTC+AGG | 0.407088 | 3.2:-74071726 | None:intergenic |
| CGGTTGGTTTCTGTTGGTAC+TGG | 0.408583 | 3.2:+74071585 | MS.gene79088:CDS |
| GCTTCTAAATCACTTCTTGA+AGG | 0.409476 | 3.2:-74071549 | None:intergenic |
| TAAAAGAAGAATAGGGTTTG+TGG | 0.440606 | 3.2:-74071364 | None:intergenic |
| TGGGAGGAAAGTCGGGTATT+CGG | 0.443287 | 3.2:+74071515 | MS.gene79088:CDS |
| CTAAGGTGCAGTTGCAAGTA+GGG | 0.450004 | 3.2:-74071173 | None:intergenic |
| ATTGTAATGGGAGGAAAGTC+GGG | 0.463638 | 3.2:+74071508 | MS.gene79088:CDS |
| TCTTAGAGCTAACTTTCAAA+GGG | 0.464488 | 3.2:+74071656 | MS.gene79088:CDS |
| ATCTTAGAGCTAACTTTCAA+AGG | 0.465935 | 3.2:+74071655 | MS.gene79088:CDS |
| TATTGTAATGGGAGGAAAGT+CGG | 0.482311 | 3.2:+74071507 | MS.gene79088:CDS |
| ATTGATCCTGAAGGAAGCAT+TGG | 0.506241 | 3.2:+74071720 | MS.gene79088:CDS |
| GCTAACTTTCAAAGGGTTCG+TGG | 0.509016 | 3.2:+74071663 | MS.gene79088:CDS |
| ACGATATTCGGATACCGTAA+AGG | 0.517456 | 3.2:+74071306 | MS.gene79088:CDS |
| AGCACTTAACTTGATGCGGT+TGG | 0.518852 | 3.2:+74071569 | MS.gene79088:CDS |
| ACTACCAACCTTGGTGATGT+AGG | 0.531843 | 3.2:-74071061 | None:intergenic |
| ATCCACTGTGGTTACACCAT+TGG | 0.548210 | 3.2:-74071094 | None:intergenic |
| ACTAAGGTGCAGTTGCAAGT+AGG | 0.551502 | 3.2:-74071174 | None:intergenic |
| TAGAAGCACTTAACTTGATG+CGG | 0.566569 | 3.2:+74071565 | MS.gene79088:CDS |
| ATGAGTGAAGAATGTGATGA+TGG | 0.567861 | 3.2:-74071261 | None:intergenic |
| TTGATGCGGTTGGTTTCTGT+TGG | 0.569035 | 3.2:+74071579 | MS.gene79088:CDS |
| GGATTATGTATTGTAATGGG+AGG | 0.573929 | 3.2:+74071499 | MS.gene79088:CDS |
| TTTCATTTGATTGATCCTGA+AGG | 0.587099 | 3.2:+74071711 | MS.gene79088:CDS |
| ATGGCCTACATCACCAAGGT+TGG | 0.591227 | 3.2:+74071057 | MS.gene79088:CDS |
| GGTAGTAGCAGCATGACCAA+TGG | 0.630024 | 3.2:+74071078 | MS.gene79088:CDS |
| CATGCTGCTACTACCAACCT+TGG | 0.631697 | 3.2:-74071070 | None:intergenic |
| TTACAATACATAATCCAAAG+AGG | 0.638246 | 3.2:-74071492 | None:intergenic |
| TTAGCAAAGGAAATGAGAGG+AGG | 0.650662 | 3.2:+74071411 | MS.gene79088:CDS |
| GTACCATAAATATATGACAA+TGG | 0.651023 | 3.2:+74071038 | None:intergenic |
| GACAATGGCCTACATCACCA+AGG | 0.711681 | 3.2:+74071053 | MS.gene79088:CDS |
| GACCAATGGTGTAACCACAG+TGG | 0.740457 | 3.2:+74071092 | MS.gene79088:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTGGATTATGTATTGTAAT+GGG | + | chr3.2:74071496-74071515 | MS.gene79088:CDS | 20.0% |
| !!! | AAAAACTTACTTTTCCTTTA+CGG | - | chr3.2:74071323-74071342 | None:intergenic | 20.0% |
| !!! | ATGGATATTTGTTATAGTTT+TGG | - | chr3.2:74071245-74071264 | None:intergenic | 20.0% |
| ! | CTTTGGATTATGTATTGTAA+TGG | + | chr3.2:74071495-74071514 | MS.gene79088:CDS | 25.0% |
| ! | TTACAATACATAATCCAAAG+AGG | - | chr3.2:74071495-74071514 | None:intergenic | 25.0% |
| !!! | CAAGTTCTAAAAGAAGAATA+GGG | - | chr3.2:74071374-74071393 | None:intergenic | 25.0% |
| !!! | GTTTTGAAATGCTAATATCT+TGG | - | chr3.2:74071215-74071234 | None:intergenic | 25.0% |
| ATCTTAGAGCTAACTTTCAA+AGG | + | chr3.2:74071655-74071674 | MS.gene79088:CDS | 30.0% | |
| ATGACATCTACAACAATTAC+TGG | + | chr3.2:74071282-74071301 | MS.gene79088:CDS | 30.0% | |
| TAAAAGAAGAATAGGGTTTG+TGG | - | chr3.2:74071367-74071386 | None:intergenic | 30.0% | |
| TCTTAGAGCTAACTTTCAAA+GGG | + | chr3.2:74071656-74071675 | MS.gene79088:CDS | 30.0% | |
| TTTCATTTGATTGATCCTGA+AGG | + | chr3.2:74071711-74071730 | MS.gene79088:CDS | 30.0% | |
| !! | GCAAGTTCTAAAAGAAGAAT+AGG | - | chr3.2:74071375-74071394 | None:intergenic | 30.0% |
| AAAAACAAGTTCGATCATGG+AGG | + | chr3.2:74071121-74071140 | MS.gene79088:CDS | 35.0% | |
| ACAATTACTGGCACGATATT+CGG | + | chr3.2:74071294-74071313 | MS.gene79088:CDS | 35.0% | |
| ATGAGTGAAGAATGTGATGA+TGG | - | chr3.2:74071264-74071283 | None:intergenic | 35.0% | |
| GCTTCTAAATCACTTCTTGA+AGG | - | chr3.2:74071552-74071571 | None:intergenic | 35.0% | |
| GTCAAAAACAAGTTCGATCA+TGG | + | chr3.2:74071118-74071137 | MS.gene79088:CDS | 35.0% | |
| TCCTTTGCTAAAACACTTGT+TGG | - | chr3.2:74071402-74071421 | None:intergenic | 35.0% | |
| ! | GGATTATGTATTGTAATGGG+AGG | + | chr3.2:74071499-74071518 | MS.gene79088:CDS | 35.0% |
| ! | GTCTTGTTCTTGTTCTACTA+AGG | - | chr3.2:74071193-74071212 | None:intergenic | 35.0% |
| ! | TATTGTAATGGGAGGAAAGT+CGG | + | chr3.2:74071507-74071526 | MS.gene79088:CDS | 35.0% |
| !! | ACTTGTTTTCAACTCCTCTT+TGG | + | chr3.2:74071478-74071497 | MS.gene79088:CDS | 35.0% |
| !! | GTTGGTACTGGTGTTATAAA+TGG | + | chr3.2:74071597-74071616 | MS.gene79088:CDS | 35.0% |
| !! | GTTTTAGCAAAGGAAATGAG+AGG | + | chr3.2:74071408-74071427 | MS.gene79088:CDS | 35.0% |
| !! | TAGAAGCACTTAACTTGATG+CGG | + | chr3.2:74071565-74071584 | MS.gene79088:CDS | 35.0% |
| !!! | TCCAACAAGTGTTTTAGCAA+AGG | + | chr3.2:74071398-74071417 | MS.gene79088:CDS | 35.0% |
| !!! | TTGTTTTTGACAATCCACTG+TGG | - | chr3.2:74071109-74071128 | None:intergenic | 35.0% |
| ACGATATTCGGATACCGTAA+AGG | + | chr3.2:74071306-74071325 | MS.gene79088:CDS | 40.0% | |
| TTAGCAAAGGAAATGAGAGG+AGG | + | chr3.2:74071411-74071430 | MS.gene79088:CDS | 40.0% | |
| ! | ATTGATCCTGAAGGAAGCAT+TGG | + | chr3.2:74071720-74071739 | MS.gene79088:CDS | 40.0% |
| ! | ATTGTAATGGGAGGAAAGTC+GGG | + | chr3.2:74071508-74071527 | MS.gene79088:CDS | 40.0% |
| ACTAAGGTGCAGTTGCAAGT+AGG | - | chr3.2:74071177-74071196 | None:intergenic | 45.0% | |
| ATCCACTGTGGTTACACCAT+TGG | - | chr3.2:74071097-74071116 | None:intergenic | 45.0% | |
| CTAAGGTGCAGTTGCAAGTA+GGG | - | chr3.2:74071176-74071195 | None:intergenic | 45.0% | |
| GCTAACTTTCAAAGGGTTCG+TGG | + | chr3.2:74071663-74071682 | MS.gene79088:CDS | 45.0% | |
| TCTTGACCAATGCTTCCTTC+AGG | - | chr3.2:74071729-74071748 | None:intergenic | 45.0% | |
| ! | AGCACTTAACTTGATGCGGT+TGG | + | chr3.2:74071569-74071588 | MS.gene79088:CDS | 45.0% |
| !! | ACTACCAACCTTGGTGATGT+AGG | - | chr3.2:74071064-74071083 | None:intergenic | 45.0% |
| !! | TTGATGCGGTTGGTTTCTGT+TGG | + | chr3.2:74071579-74071598 | MS.gene79088:CDS | 45.0% |
| ATGGCCTACATCACCAAGGT+TGG | + | chr3.2:74071057-74071076 | MS.gene79088:CDS | 50.0% | |
| CATGCTGCTACTACCAACCT+TGG | - | chr3.2:74071073-74071092 | None:intergenic | 50.0% | |
| GACAATGGCCTACATCACCA+AGG | + | chr3.2:74071053-74071072 | MS.gene79088:CDS | 50.0% | |
| GACCAATGGTGTAACCACAG+TGG | + | chr3.2:74071092-74071111 | MS.gene79088:CDS | 50.0% | |
| GGTAGTAGCAGCATGACCAA+TGG | + | chr3.2:74071078-74071097 | MS.gene79088:CDS | 50.0% | |
| TGGGAGGAAAGTCGGGTATT+CGG | + | chr3.2:74071515-74071534 | MS.gene79088:CDS | 50.0% | |
| !! | CGGTTGGTTTCTGTTGGTAC+TGG | + | chr3.2:74071585-74071604 | MS.gene79088:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 74071051 | 74071779 | 74071051 | ID=MS.gene79088 |
| chr3.2 | mRNA | 74071051 | 74071779 | 74071051 | ID=MS.gene79088.t1;Parent=MS.gene79088 |
| chr3.2 | exon | 74071051 | 74071779 | 74071051 | ID=MS.gene79088.t1.exon1;Parent=MS.gene79088.t1 |
| chr3.2 | CDS | 74071051 | 74071779 | 74071051 | ID=cds.MS.gene79088.t1;Parent=MS.gene79088.t1 |
| Gene Sequence |
| Protein sequence |
